genome.fa.s8.2.7.7.80.10.50.1000.111.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  111  of  135  ( 16172 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40826400--40826451	16	3.2	16	94	0	86	28	0	36	34	1.58
40826432--40826541	45	2.6	43	80	9	129	33	5	29	31	1.80
40826675--40826716	15	2.9	15	82	10	52	52	0	0	47	1.00
40830780--40830850	28	2.6	28	78	13	76	45	1	0	53	1.09
40830802--40830846	21	2.1	22	84	12	58	42	2	0	55	1.12
40832011--40832081	28	2.6	28	78	13	76	45	1	0	53	1.09
40832033--40832077	21	2.1	22	84	12	58	42	2	0	55	1.12
40835700--40835729	14	2.1	14	93	0	51	23	0	3	73	0.98
40838141--40838178	17	2.2	18	85	4	51	28	0	18	52	1.45
40838588--40838624	17	2.1	18	90	5	58	24	0	2	72	0.97
40838588--40838636	13	3.8	13	82	15	57	22	0	4	73	1.00
40843721--40843809	46	1.9	46	83	2	115	25	23	20	30	1.98
40845376--40845400	11	2.3	11	100	0	50	52	8	0	40	1.31
40859878--40859927	25	2.0	25	92	0	82	52	16	20	12	1.75
40867158--40867219	30	2.0	32	90	6	101	66	0	4	29	1.12
40868866--40868901	13	2.8	13	87	4	56	22	19	27	30	1.98
40875478--40875720	22	11.0	22	84	1	299	41	16	12	28	1.85
40875478--40875720	44	5.5	44	88	0	333	41	16	12	28	1.85
40875478--40875715	88	2.7	88	91	0	368	42	17	11	28	1.84
40875856--40876080	43	5.3	43	82	3	233	27	24	18	30	1.98
40876469--40876519	21	2.4	21	90	0	75	1	45	17	35	1.60
40876385--40876619	87	2.7	87	95	0	409	10	30	19	39	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40876556--40876606	21	2.4	21	90	0	75	1	45	17	35	1.60
40878287--40879277	500	2.0	491	99	0	1858	30	20	15	32	1.94
40882471--40882625	9	17.8	9	70	14	110	31	3	19	45	1.66
40882464--40882821	16	21.4	16	66	21	125	34	2	17	45	1.62
40882516--40882554	19	2.1	19	85	9	53	30	0	17	51	1.46
40882536--40882641	25	4.2	24	75	10	88	30	1	20	47	1.61
40882509--40882625	52	2.3	50	83	7	137	29	0	21	47	1.56
40882629--40882672	19	2.3	19	92	0	70	36	0	18	45	1.49
40882744--40882784	13	2.8	15	85	14	59	34	0	19	46	1.50
40887194--40888026	114	7.3	114	90	0	1085	27	25	22	25	2.00
40887194--40888026	229	3.6	228	88	1	1096	27	25	22	25	2.00
40887207--40888026	343	2.4	341	86	2	1106	27	25	22	25	2.00
40888129--40888194	22	3.0	23	82	6	91	43	18	6	31	1.74
40888998--40889095	42	2.3	42	84	5	117	31	25	16	26	1.96
40890756--40890821	16	4.3	16	71	19	52	22	3	3	71	1.14
40890756--40890821	11	6.5	10	75	14	55	22	3	3	71	1.14
40890984--40891030	24	2.0	23	87	4	67	21	21	0	57	1.41
40890999--40891023	13	1.9	13	100	0	50	20	24	0	56	1.43
40891864--40891974	25	4.5	24	75	2	87	20	26	21	31	1.98
40891865--40891974	50	2.2	50	83	3	132	20	26	21	30	1.98
40892691--40892804	28	4.1	28	86	3	142	29	21	23	25	1.99
40893162--40893329	27	6.3	27	77	8	164	15	19	19	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40893178--40893328	80	1.9	80	84	2	205	14	18	21	45	1.85
40893558--40893725	27	6.3	27	86	2	214	16	20	21	42	1.89
40899613--40899652	21	1.9	21	85	10	55	15	5	2	77	1.04
40904643--40904773	63	2.1	63	97	0	244	40	18	16	25	1.90
40914536--40914629	1	94.0	1	95	0	170	0	2	0	97	0.15
40915508--40915548	21	1.9	22	85	5	57	43	4	14	36	1.67
40918639--40918676	20	1.9	20	89	10	60	34	2	7	55	1.43
40922588--40922665	26	2.9	27	82	5	95	34	24	30	10	1.89
40922601--40922679	26	3.0	26	83	7	88	36	21	29	12	1.90
40925759--40925783	6	4.2	6	100	0	50	48	0	0	52	1.00
40925722--40925798	31	2.5	31	76	16	88	37	0	1	61	1.05
40938161--40938563	203	2.0	200	97	2	754	35	16	15	33	1.90
40944201--40944241	21	2.0	21	100	0	82	4	51	4	39	1.45
40952304--40952343	21	1.9	21	94	0	71	60	7	10	22	1.54
40959950--40959978	1	29.0	1	100	0	58	100	0	0	0	0.00
40961405--40961463	20	3.0	18	75	20	64	38	11	5	44	1.63
40962069--40962106	16	2.4	16	95	0	67	36	2	34	26	1.71
40963970--40964030	30	2.1	29	82	14	72	22	9	3	63	1.39
40964133--40964264	64	2.0	65	98	1	257	18	10	15	55	1.68
40964307--40964503	104	1.9	105	80	5	229	27	15	20	36	1.93
40968693--40968789	48	2.0	48	85	0	131	74	6	8	11	1.22
40968746--40969438	346	2.0	346	99	0	1377	41	15	21	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40972195--40972228	17	2.0	17	94	0	59	50	17	2	29	1.61
40974980--40975040	27	2.3	27	82	5	70	22	24	13	39	1.90
40979419--40979458	20	2.0	20	90	0	62	50	12	10	27	1.72
40979407--40979473	34	1.9	35	90	3	109	46	13	8	31	1.74
40980656--40980711	29	1.9	29	85	0	76	35	14	12	37	1.84
40998687--40998717	13	2.4	13	94	0	53	41	35	16	6	1.74
41003395--41003447	15	3.6	15	85	7	65	0	18	0	81	0.70
41003407--41003443	19	1.9	19	89	10	58	0	18	0	81	0.70
41007944--41007982	19	2.0	21	85	10	55	69	5	10	15	1.34
41008177--41008256	21	4.0	21	82	9	105	36	13	10	40	1.79
41008197--41008260	19	3.3	19	88	4	92	37	14	9	39	1.78
41009030--41009124	42	2.3	42	85	7	131	41	17	24	16	1.90
41019586--41020316	106	6.9	106	90	5	1050	37	15	16	30	1.90
41020744--41020818	28	2.6	28	78	14	82	32	1	9	57	1.39
41021185--41021214	12	2.5	12	100	0	60	13	13	56	16	1.67
41021408--41021602	97	2.0	97	91	3	313	32	18	13	35	1.90
41022848--41023013	90	1.9	90	87	6	248	41	3	5	50	1.41
41022902--41022963	20	3.0	20	80	2	70	43	1	4	50	1.33
41023543--41023596	27	2.0	27	96	0	99	27	7	31	33	1.84
41026722--41026774	26	2.0	26	85	7	72	30	30	5	33	1.81
41030720--41030871	78	1.9	79	89	4	236	46	5	7	41	1.54
41031480--41031549	29	2.3	30	85	9	90	25	15	10	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41037014--41037083	29	2.3	30	85	9	90	25	15	10	48	1.76
41042756--41042924	91	1.9	90	84	1	230	28	20	14	36	1.92
41046026--41046181	39	3.8	40	85	7	174	19	18	22	39	1.93
41046048--41046196	45	3.4	45	82	10	202	19	18	20	40	1.91
41051126--41051168	20	2.2	20	91	0	68	46	4	0	48	1.22
41051130--41051169	12	3.7	12	75	25	52	47	5	0	47	1.24
41051131--41051169	20	2.0	20	100	0	78	46	5	0	48	1.24
41058514--41058664	81	1.8	82	84	5	207	45	12	4	37	1.63
41059608--41059649	21	2.0	21	82	13	52	35	4	9	50	1.56
41064980--41065050	31	2.3	32	83	11	94	35	0	0	64	0.94
41064984--41065048	10	6.8	10	74	20	59	35	0	0	64	0.94
41074643--41074686	21	2.2	19	84	8	52	56	0	22	20	1.42
41087346--41087407	31	2.0	31	87	0	88	48	11	6	33	1.65
41088498--41089036	269	2.0	270	99	0	1071	42	7	10	39	1.68
41098160--41098236	23	3.5	22	76	10	70	35	2	5	57	1.35
41098224--41098250	9	3.0	9	100	0	54	55	0	0	44	0.99
41098584--41098646	7	9.4	7	81	14	80	84	0	0	15	0.63
41098583--41098646	32	2.0	33	90	3	103	82	0	0	17	0.66
41098581--41098647	13	5.2	13	77	12	66	80	0	0	19	0.71
41098583--41098646	25	2.5	25	87	7	85	82	0	0	17	0.66
41104320--41104492	86	2.0	86	95	0	310	24	0	45	30	1.54
41106795--41106992	98	2.0	99	86	2	274	34	12	19	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41118688--41118890	107	1.9	107	81	7	243	36	12	23	27	1.91
41118941--41118972	16	2.0	16	100	0	64	37	12	6	43	1.68
41119492--41119524	12	2.8	12	90	4	50	30	0	3	66	1.06
41122730--41122862	67	2.0	67	85	4	178	42	4	5	48	1.46
41125404--41125455	26	2.0	26	100	0	104	23	23	11	42	1.86
41136330--41136558	114	2.0	115	99	0	451	44	6	6	41	1.58
41139917--41139952	10	3.7	10	85	7	56	30	0	5	63	1.17
41141539--41141582	18	2.5	17	77	7	52	29	0	6	63	1.20
41144903--41145011	25	4.4	25	90	0	155	19	26	21	33	1.97
41144902--41145046	25	5.8	25	84	3	103	22	24	21	31	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135